Query 000460
Match_columns 1482
No_of_seqs 301 out of 560
Neff 5.8
Searched_HMMs 29240
Date Tue Mar 26 21:50:39 2013
Command hhsearch -i /local_scratch/syshi/lefta3m2/000460.a3m -d /local_scratch/syshi/pdb70.hhm -v 0 -o /local_scratch/syshi/H2_9-12//hhsearch_pdb/000460hhsearch_pdb
No Hit Prob E-value P-value Score SS Cols Query HMM Template HMM
1 3ny3_A E3 ubiquitin-protein li 1.0 1 1 191.4 4.9 73 113-185 2-75 (75)
2 3nis_A E3 ubiquitin-protein li 1.0 1 1 187.4 6.0 74 112-185 5-81 (82)
3 2e5n_A RNA polymerase II elong 1.0 1 1 87.5 5.7 82 869-954 13-97 (100)
4 2doa_A RNA polymerase II elong 1.0 1 1 86.6 5.3 82 869-954 12-96 (104)
5 1bby_A RAP30; average structur 1.0 1 1 26.3 2.1 32 898-930 35-66 (69)
6 2dip_A Zinc finger SWIM domain 1.0 1 1 24.7 1.7 44 116-163 35-78 (98)
7 2fc7_A ZZZ3 protein; structure 1.0 1 1 22.9 3.6 44 117-161 26-74 (82)
8 2dja_A Midline-2; tripartite m 1.0 1 1 22.7 0.8 41 116-161 19-59 (84)
9 2ct0_A Non-SMC element 1 homol 1.0 1 1 21.7 -0.5 22 1391-1412 28-49 (74)
10 2csv_A Tripartite motif protei 1.0 1 1 21.5 2.3 40 114-160 17-56 (72)
No 1
>3ny3_A E3 ubiquitin-protein ligase UBR2; zinc finger-like, ubiquitin ligase, protein binding, lygase,; 1.60A {Homo sapiens} PDB: 3ny2_A 3ny1_A
Probab=1.00 E-value=1 Score=191.41 Aligned_cols=73 Identities=41% Similarity=1.090 Sum_probs=69.0
Q ss_pred CCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCCCCCEEEEEEC-CCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 89875463224887259803578899820053335888999950699827-88423589821235667777788
Q 000460 113 GQRGVCGAVWGNNDIAYRCRTCEHDPTCAICVPCFQNGNHKEHDYSIIYT-GGGCCDCGDVTAWKREGFCSRHK 185 (1482)
Q Consensus 113 ~~~~~Cg~v~~~ge~~y~C~~C~~d~t~~lC~~CF~~~~H~gH~~~~~~~-~gG~CDCGD~~awk~~~fC~~H~ 185 (1482)
...++||++|++||++|+|+||+.|++|+||.+||++++|+||+|+++.+ +||+|||||++|||+++||++|.
T Consensus 2 ~~g~~Cg~vf~~ge~~Y~C~~C~~d~tc~lC~~CF~~~~H~gH~~~~~~s~~gG~CDCGD~eawk~~~fC~~H~ 75 (75)
T 3ny3_A 2 PLGSLCGRVFKVGEPTYSCRDCAVDPTCVLCMECFLGSIHRDHRYRMTTSGGGGFCDCGDTEAWKEGPYCQKHE 75 (75)
T ss_dssp ----CCCCBCCTTCEEEEETTTBSSTTCCBCHHHHHTSGGGGSCEEEEECCSCBBCCTTCTTTBSSCCSCTTTC
T ss_pred CCCCCCCCCCCCCCEEEECCCCCCCCCEEECHHHCCCCCCCCCEEEEEECCCCCEECCCCHHHCCCCCCCCCCC
T ss_conf 88896688505998789794088999853876788998827845899976998780496999908898888888
No 2
>3nis_A E3 ubiquitin-protein ligase UBR1; E3 ubiquitin ligase, UBR BOX, zinc-binding protein, N-END RU ligase, metal binding protein; 1.68A {Saccharomyces cerevisiae} PDB: 3nii_A 3nij_A 3nih_A 3nik_A 3nim_A 3nin_A 3nil_A 3nit_A
Probab=1.00 E-value=1 Score=187.45 Aligned_cols=74 Identities=31% Similarity=0.750 Sum_probs=69.0
Q ss_pred CCCCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCCCCCEEEEEEC---CCCCCCCCCCCCCCCCCCCCCCC
Q ss_conf 289875463224887259803578899820053335888999950699827---88423589821235667777788
Q 000460 112 IGQRGVCGAVWGNNDIAYRCRTCEHDPTCAICVPCFQNGNHKEHDYSIIYT---GGGCCDCGDVTAWKREGFCSRHK 185 (1482)
Q Consensus 112 ~~~~~~Cg~v~~~ge~~y~C~~C~~d~t~~lC~~CF~~~~H~gH~~~~~~~---~gG~CDCGD~~awk~~~fC~~H~ 185 (1482)
.-..++||++|++|+++|+|+||+.|++|+||.+||++++|+||+|.|..+ +||+|||||++|||+++||+.+.
T Consensus 5 ~h~g~~Cg~vf~~ge~~Y~C~~C~~d~tcvlC~~CF~~s~H~gH~~~~~~s~~~~gG~CDCGD~eawk~~~fC~~~~ 81 (82)
T 3nis_A 5 KHTGRNCGRKFKIGEPLYRCHECGCDDTCVLCIHCFNPKDHVNHHVCTDICTEFTSGICDCGDEEAWNSPLHCKAEE 81 (82)
T ss_dssp CCTTSCCCCBCCTTCEEEEETTTBSSTTCCBCTTTCCGGGGTTSCEEEEECCSSEEEBCCTTCGGGBSSCCCCGGGC
T ss_pred CCCCCCCCCCCCCCCEEEEEECCCCCCCCEECHHHCCCCCCCCCEEEEEEECCCCCCEECCCCHHHHCCCCCCCCCC
T ss_conf 44899888705699778983156799984571566799885896599999528997380297999918898888876
No 3
>2e5n_A RNA polymerase II elongation factor ELL2; ELL_N2 domain, structural genomics, NPPSFA; NMR {Homo sapiens}
Probab=1.00 E-value=1 Score=87.52 Aligned_cols=82 Identities=26% Similarity=0.308 Sum_probs=71.7
Q ss_pred HHHHHHHHHHHCCCCCHHHHHHHCCCCCCC---CCHHHHHHHHHHCCCCCCCCCCCEEEEHHHHHCCCCCCCCCCCCHHH
Q ss_conf 899999999802899868998719978889---42099999997044599988864068503121004665654582369
Q 000460 869 SLKRELVHRLAIGDATHSQLVKSLPRDLSK---FDQLQEILDAVAMYSHPSGFNQGMYSLRWSYWKELDIYHPRWSSRDL 945 (1482)
Q Consensus 869 ~lrrEIIh~Lc~~p~t~SeL~~~ipe~~~~---~~~fe~iL~eVA~f~~P~g~~~G~Y~LK~e~~~e~DPy~~~y~~~~~ 945 (1482)
-+|..|||.||++|.+.+||...+..+... ...|+.||+|||.+.++. |.|+||+++|.|+++.+++|+..|+
T Consensus 13 plReRvIHLLALkPykkpEL~~RL~kdGl~~~d~~~l~~iL~eVa~~~~~~----~~y~Lk~~~~~eVq~dWp~Yte~er 88 (100)
T 2e5n_A 13 PYRDRVIHLLALKAYKKPELLARLQKDGVNQKDKNSLGAILQQVANLNSKD----LSYTLKDYVFKELQRDWPGYSEIDR 88 (100)
T ss_dssp CHHHHHHHHHHHSCBCHHHHHHHHHHHCCCHHHHHHHHHHHHHHEEEETTT----TEEEECSTHHHHSCTTCTTCCTTHH
T ss_pred CHHHHHHHHHHCCCCCCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHCCCCC----CEEEHHHHHHHHHCCCCCCCCHHHH
T ss_conf 699999999982777869999999983697778999999999998437767----7453059999875468899889999
Q ss_pred HHHHHHHHH
Q ss_conf 999999987
Q 000460 946 QVAEERYLR 954 (1482)
Q Consensus 946 q~Aeer~~r 954 (1482)
|....+..+
T Consensus 89 q~v~r~L~~ 97 (100)
T 2e5n_A 89 RSLESVLSR 97 (100)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHHHH
T ss_conf 999999987
No 4
>2doa_A RNA polymerase II elongation factor ELL; C19ORF17, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: a.4.5.81
Probab=1.00 E-value=1 Score=86.57 Aligned_cols=82 Identities=24% Similarity=0.351 Sum_probs=71.4
Q ss_pred HHHHHHHHHHHCCCCCHHHHHHHCCCCCCC---CCHHHHHHHHHHCCCCCCCCCCCEEEEHHHHHCCCCCCCCCCCCHHH
Q ss_conf 899999999802899868998719978889---42099999997044599988864068503121004665654582369
Q 000460 869 SLKRELVHRLAIGDATHSQLVKSLPRDLSK---FDQLQEILDAVAMYSHPSGFNQGMYSLRWSYWKELDIYHPRWSSRDL 945 (1482)
Q Consensus 869 ~lrrEIIh~Lc~~p~t~SeL~~~ipe~~~~---~~~fe~iL~eVA~f~~P~g~~~G~Y~LK~e~~~e~DPy~~~y~~~~~ 945 (1482)
-+|..|||.||++|.+.+||...|..+... ...++.||++||++.++ +|.|+||+++|.|+++-+++|+..|+
T Consensus 12 plReRvIHLLALkpykk~EL~~RL~kdGl~~~d~~~l~~iL~eVA~~~~~----~~~y~Lk~~~y~eVq~dWp~Yte~er 87 (104)
T 2doa_A 12 PFRDRVLHLLALRPYRKAELLLRLQKDGLTQADKDALDGLLQQVANMSAK----DGTCTLQDCMYKDVQKDWPGYSEGDQ 87 (104)
T ss_dssp CHHHHHHHHHHHSCEEHHHHHHHHHHHCCCHHHHHHHHHHHHHSSEECSS----SCEEECCSSGGGGCCSCCTTCCSHHH
T ss_pred CHHHHHHHHHHCCCCCCHHHHHHHHHCCCCHHHHHHHHHHHHHHHHCCCC----CCEEEEHHHHHHHHCCCCCCCCHHHH
T ss_conf 68999999998277786999999998379777799999999999843776----77564149999875478899899999
Q ss_pred HHHHHHHHH
Q ss_conf 999999987
Q 000460 946 QVAEERYLR 954 (1482)
Q Consensus 946 q~Aeer~~r 954 (1482)
|....+..+
T Consensus 88 q~v~r~l~~ 96 (104)
T 2doa_A 88 QLLKRVLVR 96 (104)
T ss_dssp HHHHHHHHH
T ss_pred HHHHHHHHH
T ss_conf 999999998
No 5
>1bby_A RAP30; average structure transcription regulation, DNA- binding domain, transcription; NMR {Homo sapiens} SCOP: a.4.5.15 PDB: 2bby_A
Probab=1.00 E-value=1 Score=26.35 Aligned_cols=32 Identities=22% Similarity=0.392 Sum_probs=26.2
Q ss_pred CCCHHHHHHHHHHCCCCCCCCCCCEEEEHHHHH
Q ss_conf 942099999997044599988864068503121
Q 000460 898 KFDQLQEILDAVAMYSHPSGFNQGMYSLRWSYW 930 (1482)
Q Consensus 898 ~~~~fe~iL~eVA~f~~P~g~~~G~Y~LK~e~~ 930 (1482)
-+.-+-+||++||+|.. +|...|+|+|||||-
T Consensus 35 P~~yLKeiL~~Ia~~~k-~g~~~~~weLKpEyr 66 (69)
T 1bby_A 35 PVVYLKEILKEIGVQNV-KGIHKNTWELKPEYR 66 (69)
T ss_dssp CHHHHHHHHHHHCCCBC-CTTCCCBBCCCCSSC
T ss_pred CHHHHHHHHHHHHHHHC-CCCCCCEEECCHHHH
T ss_conf 48999999999999973-798778021759876
No 6
>2dip_A Zinc finger SWIM domain-containing protein 2; ZZ domain, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.44.1.6
Probab=1.00 E-value=1 Score=24.67 Aligned_cols=44 Identities=20% Similarity=0.505 Sum_probs=32.1
Q ss_pred CCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCCCCCEEEEEECC
Q ss_conf 754632248872598035788998200533358889999506998278
Q 000460 116 GVCGAVWGNNDIAYRCRTCEHDPTCAICVPCFQNGNHKEHDYSIIYTG 163 (1482)
Q Consensus 116 ~~Cg~v~~~ge~~y~C~~C~~d~t~~lC~~CF~~~~H~gH~~~~~~~~ 163 (1482)
..|+..--. ..-|+|..|.- .-+|..||..+.|..|.|..+...
T Consensus 35 d~C~~~pI~-G~RykC~~C~d---~DLC~~C~~~~~H~~H~f~~i~~~ 78 (98)
T 2dip_A 35 NNCKQFPIE-GKCYKCTECIE---YHLCQECFDSYCHLSHTFTFREKR 78 (98)
T ss_dssp SSSCCSSCC-SCEEEESSSSS---CEEEHHHHHTTSGGGSCEEECCSS
T ss_pred CCCCCCCCC-CCEEECCCCCC---CCHHHHHHCCCCCCCCCEEEECCC
T ss_conf 698888730-67578887999---307889774698788981681688
No 7
>2fc7_A ZZZ3 protein; structure genomics, ZZ domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.44.1.6
Probab=1.00 E-value=1 Score=22.86 Aligned_cols=44 Identities=23% Similarity=0.576 Sum_probs=31.3
Q ss_pred CCCCCCCCCCEEEEECCCCCCCCCCCCCCCCCC----CCC-CCCEEEEEE
Q ss_conf 546322488725980357889982005333588----899-995069982
Q 000460 117 VCGAVWGNNDIAYRCRTCEHDPTCAICVPCFQN----GNH-KEHDYSIIY 161 (1482)
Q Consensus 117 ~Cg~v~~~ge~~y~C~~C~~d~t~~lC~~CF~~----~~H-~gH~~~~~~ 161 (1482)
.|+..--. .+-|+|.+|.-+...-||..||.. ..| ..|.+..+.
T Consensus 26 ~C~~~pI~-G~RykC~~C~d~~~yDLC~~C~~~g~~~~~H~~~H~~~~i~ 74 (82)
T 2fc7_A 26 NCGIEPIQ-GVRWHCQDCPPEMSLDFCDSCSDCLHETDIHKEDHQLEPIY 74 (82)
T ss_dssp SSCCSSEE-SCEEEESSSCSSSCCEEEGGGTTCCCCCSSCCSSSCEEEEC
T ss_pred CCCCCCCE-ECEEECCCCCCCCCEECHHHHHHCCCCCCCCCCCCCEEEEE
T ss_conf 98787566-03378980879866051788874856668889999988860
No 8
>2dja_A Midline-2; tripartite motif protein 1, ZF-B_BOX, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens} SCOP: g.43.1.1 PDB: 2dq5_A
Probab=1.00 E-value=1 Score=22.71 Aligned_cols=41 Identities=20% Similarity=0.391 Sum_probs=30.2
Q ss_pred CCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCCCCCEEEEEE
Q ss_conf 7546322488725980357889982005333588899995069982
Q 000460 116 GVCGAVWGNNDIAYRCRTCEHDPTCAICVPCFQNGNHKEHDYSIIY 161 (1482)
Q Consensus 116 ~~Cg~v~~~ge~~y~C~~C~~d~t~~lC~~CF~~~~H~gH~~~~~~ 161 (1482)
..|...=. ...-|.|.+|. ..+|..|+..+.|+||++.-..
T Consensus 19 ~~C~~H~~-e~l~lfC~~d~----~~iC~~C~~~~~H~~H~~~~l~ 59 (84)
T 2dja_A 19 ITCLDHEN-EKVNMYCVSDD----QLICALCKLVGRHRDHQVASLN 59 (84)
T ss_dssp CCCSSCSS-SCCCEEETTTT----EEECHHHHHTSTTTTCCBCCCC
T ss_pred CCCCCCCC-CCCCEECCCCC----CEECCCCCCCCCCCCCCCCCHH
T ss_conf 96737587-34117738899----0676567488988998852799
No 9
>2ct0_A Non-SMC element 1 homolog; ring domain, structural genomics, NPPSFA, national project on protein structural and functional analyses; NMR {Homo sapiens}
Probab=1.00 E-value=1 Score=21.65 Aligned_cols=22 Identities=32% Similarity=0.764 Sum_probs=17.3
Q ss_pred CCEECCCCHHHHHHHHHHHHHH
Q ss_conf 4223477435555347898998
Q 000460 1391 GIHLSSCGHAVHQGCLDRYVSS 1412 (1482)
Q Consensus 1391 g~~~s~c~h~~h~~c~~~y~~~ 1412 (1482)
|+--..|||+.|..|.+|||.+
T Consensus 28 g~~C~~C~h~fH~~Ci~kWl~~ 49 (74)
T 2ct0_A 28 GQSCETCGIRMHLPCVAKYFQS 49 (74)
T ss_dssp SEECSSSCCEECHHHHHHHSTT
T ss_pred CCCCCCCCCHHHHHHHHHHHHH
T ss_conf 8863887725659999999984
No 10
>2csv_A Tripartite motif protein 29; ZF-B_BOX domain, TRIM29, ataxia-telangiectasia group D-associated protein, ATDC, structural genomics, NPPSFA; NMR {Homo sapiens} SCOP: g.43.1.1
Probab=1.00 E-value=1 Score=21.50 Aligned_cols=40 Identities=23% Similarity=0.461 Sum_probs=30.7
Q ss_pred CCCCCCCCCCCCCEEEEECCCCCCCCCCCCCCCCCCCCCCCCEEEEE
Q ss_conf 98754632248872598035788998200533358889999506998
Q 000460 114 QRGVCGAVWGNNDIAYRCRTCEHDPTCAICVPCFQNGNHKEHDYSII 160 (1482)
Q Consensus 114 ~~~~Cg~v~~~ge~~y~C~~C~~d~t~~lC~~CF~~~~H~gH~~~~~ 160 (1482)
....|...- ...-|.|.+|. ..+|..|+. +.|+||++.-.
T Consensus 17 ~~~~C~~H~--e~l~lfC~~d~----~~iC~~C~~-~~H~~H~~~~l 56 (72)
T 2csv_A 17 EARKCPVHG--KTMELFCQTDQ----TCICYLCMF-QEHKNHSTVTV 56 (72)
T ss_dssp SCCBCTTTC--CBCCEEESSSC----CEECHHHHH-TTTSSSCEEEH
T ss_pred CCCCCCCCC--CCEEEEECCCC----EEECCCCCC-CCCCCCCEECH
T ss_conf 548674649--71678847999----188543488-88999888359
Done!